Segmentation of T1-MRI of the human cortex using a 3D grey-level morphology approach

Authors:
Roger Hult
Affiliations:
Centre for Image Analysis, Uppsala University, Uppsala, Sweden and Dept. Clinical Neuroscience, Human Brain Informatics, Karolinska Institutet, Stockholm, Sweden
Venue:
SCIA'03 Proceedings of the 13th Scandinavian conference on Image analysis
Year:
2003

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Grey-Level Morphology Based Segmentation of MRI of the Human Cortex

ICIAP '01 Proceedings of the 11th International Conference on Image Analysis and Processing
Image Analysis and Mathematical Morphology

Image Analysis and Mathematical Morphology

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Abstract

In this paper, an algorithm for fully automatic segmentation of the cortex from T1-weighted transversal, coronal, or sagittal MRI data is presented. The segmentation algorithm uses a histogram-based method to find accurate threshold values. There are four initial masks created: first two thresholded masks from the original volume, providing background and brain tissue; then a third mask thresholded from a 3D grey-level eroded version of the volume, providing brain tissue; and lastly a fourth mask thresholded from a 3D grey-level dilated version of the volume, providing surrounding fat. On the start slice of these masks binary morphological operations and logical operations are used; then the rest of the slices are segmented using information from the previous slice combined with the other masks. Information from earlier slices is propagated to keep the segmented volume from leaking into nonbrain tissue.